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mmu_circFlcn_920
Basic information of circular RNA
PanCircBase ID:
mmu_circFlcn_920
mm39_Chr. Position ID:
chr11|59684911|59692029|-
Gene name:
Flcn
Transcript:
ENSMUST00000102697.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,11,10,9,8,7,6
Exon/intron offsets:
0,187,1055,1664,3969,5268,6957
Genomic length:
7118
Exon/intron sizes in nt:
1,06,13,21,24,11,41,91,00,000
Flanking exon/introns:
chr11:59683637-59684911|chr11:59692029-59692954
Splice length:
920
Other database IDs:
circAtlas: mmu-Flcn_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_19464
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTTGAGGCAGAGCAGTTTGGATGTCCACAGCGTGCCCAGAGGATGAACACTGCCTTCACGCCCTTCCTGCACCAGAGGAACGGCAACGCTGCCCGCTCTCTGACCTCCTTGACCAGTGATGACAACTTGTGGGCGTGTCTGCACACTTCCTTTGCCTGGCTCCTGAAGGCATGCGGTAGCAGGCTGACAGAAAAGCTCTTAGAGGGCGCTCCCACAGAGGACACCCTGGTCCAGATGGAGAAGCTTGCTGACTTGGAGGAAGAATCAGAAAGTTGGGACAATTCTGAGGCTGAGGAGGAGGAGAAAGCTCCTGTTACACCAGAGGGTGCTGAAGGGCGAGAGCTGACCAGTTGCCCAACAGAGTCATCCTTTCTCTCAGCCTGTGGGAGCTGGCAGCCCCCAAAGCTTACCGGCTTCAAGTCTCTTCGACACATGAGACAGGTCTTGGGTGCTCCATCCTTCCGTATGTTGGCTTGGCATGTCCTCATGGGGAATCAGGTGATCTGGAAAAGCAGAGATGTGAACCTGGTCCATTCAGCGTTTGAAGTCCTCCGGACCATGCTGCCTGTGGGCTGTGTCCGCATCATCCCTTACAGCAGCCAGTATGAGGAGGCCTATCGCTGCAACTTCCTGGGGCTCAGCCCTCCCGTGCCTATCCCTGCCCATGTTCTGGCCTCAGAGTTCGTAGTTGTCGTGGAGGTCCACACGGCCACTCGCTCAAACCTCCACCCTGCTGGGTGCGAGGATGACCAGTCCCTCAGCAAGTATGAGTTTGTGGTGACCAGTGGTAGCCCTGTGGCTGCAGACAGAGTTGGGCCCACTATCCTGAATAAGATTGAAGCAGCTCTGACCAACCAGAACCTGTCTGTGGATGTGGTGGACCAATGTCTCATCTGCCTCAAGGAGGAATGGATGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCTCTGACCAACCAGAA
60.25
GCGTGAAGGCAGTGTTCATC
59.83
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGCAGCTCTGACCAACCA
60.25
GCGTGAAGGCAGTGTTCATC
59.83
144
PCR template sequence:
CCACTATCCTGAATAAGATTGAAGCAGCTCTGACCAACCAGAACCTGTCTGTGGATGTGGTGGACCAATGTCTCATCTGCCTCAAGGAGGAATGGATGAAGTGTTTGAGGCAGAGCAGTTTGGATGTCCACAGCGTGCCCAGAGGATGAACACTGCCTTCACGCCCTTCCTGCACCAGAGGAACGGCAACGCTGCCCGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-540-3p(2), mmu-miR-103-3p(1), mmu-miR-34a-5p(1), mmu-miR-382-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAATGGATGAAGTGTTTGAGGCAG
siRNA sets
AAACACTTCATCCATTCCT, CAAACACTTCATCCATTCC, TGCCTCAAACACTTCATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFLCN_920_ORF_1
1.0858
0.334167287
0.993050263
951
ORF sequence:
ATGTCTCATCTGCCTCAAGGAGGAATGGATGAAGTGTTTGAGGCAGAGCAGTTTGGATGTCCACAGCGTGCCCAGAGGATGAACACTGCCTTCACGCCCTTCCTGCACCAGAGGAACGGCAACGCTGCCCGCTCTCTGACCTCCTTGACCAGTGATGACAACTTGTGGGCGTGTCTGCACACTTCCTTTGCCTGGCTCCTGAAGGCATGCGGTAGCAGGCTGACAGAAAAGCTCTTAGAGGGCGCTCCCACAGAGGACACCCTGGTCCAGATGGAGAAGCTTGCTGACTTGGAGGAAGAATCAGAAAGTTGGGACAATTCTGAGGCTGAGGAGGAGGAGAAAGCTCCTGTTACACCAGAGGGTGCTGAAGGGCGAGAGCTGACCAGTTGCCCAACAGAGTCATCCTTTCTCTCAGCCTGTGGGAGCTGGCAGCCCCCAAAGCTTACCGGCTTCAAGTCTCTTCGACACATGAGACAGGTCTTGGGTGCTCCATCCTTCCGTATGTTGGCTTGGCATGTCCTCATGGGGAATCAGGTGATCTGGAAAAGCAGAGATGTGAACCTGGTCCATTCAGCGTTTGAAGTCCTCCGGACCATGCTGCCTGTGGGCTGTGTCCGCATCATCCCTTACAGCAGCCAGTATGAGGAGGCCTATCGCTGCAACTTCCTGGGGCTCAGCCCTCCCGTGCCTATCCCTGCCCATGTTCTGGCCTCAGAGTTCGTAGTTGTCGTGGAGGTCCACACGGCCACTCGCTCAAACCTCCACCCTGCTGGGTGCGAGGATGACCAGTCCCTCAGCAAGTATGAGTTTGTGGTGACCAGTGGTAGCCCTGTGGCTGCAGACAGAGTTGGGCCCACTATCCTGAATAAGATTGAAGCAGCTCTGACCAACCAGAACCTGTCTGTGGATGTGGTGGACCAATGTCTCATCTGCCTCAAGGAGGAATGGATG
Peptide sequence:
MSHLPQGGMDEVFEAEQFGCPQRAQRMNTAFTPFLHQRNGNAARSLTSLTSDDNLWACLHTSFAWLLKACGSRLTEKLLEGAPTEDTLVQMEKLADLEEESESWDNSEAEEEEKAPVTPEGAEGRELTSCPTESSFLSACGSWQPPKLTGFKSLRHMRQVLGAPSFRMLAWHVLMGNQVIWKSRDVNLVHSAFEVLRTMLPVGCVRIIPYSSQYEEAYRCNFLGLSPPVPIPAHVLASEFVVVVEVHTATRSNLHPAGCEDDQSLSKYEFVVTSGSPVAADRVGPTILNKIEAALTNQNLSVDVVDQCLICLKEEWM
IRESfinder result
IRESfinder score
0.427361027
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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